{"id":"W2050344186","doi":"10.1016/j.jmb.2008.06.036","title":"A Contact Photo-Cross-linking Investigation of the Active Site of the 8-17 Deoxyribozyme","year":2008,"lang":"en","type":"article","venue":"Journal of Molecular Biology","topic":"Advanced biosensing and bioanalysis techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":29,"is_retracted":false,"has_abstract":false,"ca_institutions":"Simon Fraser University","funders":"","keywords":"Deoxyribozyme; Phosphodiester bond; Scissile bond; Chemistry; Stereochemistry; Nucleotide; Base pair; Active site; Speed wobble; Thymine; Biophysics; RNA; Crystallography; DNA; Biochemistry; Biology; Enzyme","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002671194,0.0001285571,0.0002717162,0.00005467909,0.0000855067,0.00000356525,0.0003181244,0.0002043334,0.000001310248],"category_scores_gemma":[0.0002235896,0.00007122063,0.0004027812,0.000185886,0.0004969407,0.000004810379,0.000136419,0.0002013505,1.081691e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001872281,"about_ca_system_score_gemma":0.0001479665,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001333241,"about_ca_topic_score_gemma":0.00001028026,"domain_scores_codex":[0.9988529,0.0002333101,0.0004744436,0.0001476537,0.0001526602,0.0001389946],"domain_scores_gemma":[0.9981648,0.00002423945,0.001026334,0.000339902,0.0004089649,0.00003571168],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00009869036,0.00002274561,0.0311444,0.000006232736,0.0001253118,0.000003402069,0.00005160962,0.00002443992,0.9681749,0.0000397464,0.00006169998,0.0002468607],"study_design_scores_gemma":[0.0003224572,0.0003026285,0.02459844,0.00005328265,0.00005617702,0.0001921541,0.00001760957,0.000008769114,0.9733385,0.0004512033,0.0005819001,0.00007685002],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9973467,0.0003925148,0.001783511,0.0001705056,0.000096754,0.00009903735,0.00001813689,0.00000258044,0.00009027437],"genre_scores_gemma":[0.9978734,0.0001347995,0.001493286,0.0003743784,0.00006748181,9.318653e-7,0.000009326159,0.000009934489,0.00003645151],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.006545961,"threshold_uncertainty_score":0.2904293,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01062166791966758,"score_gpt":0.2821620360526755,"score_spread":0.2715403681330079,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}